checkComplex              package:ScISI              R Documentation

_F_u_n_c_t_i_o_n _t_o _c_h_e_c_k _a _l_i_s_t _o_f _p_r_o_t_e_i_n _c_o_m_p_l_e_x_e_s _w_r_t _S_c_I_S_I

_D_e_s_c_r_i_p_t_i_o_n:

     This function takes a named list of protein complexes (where each
     protein complex name indexes an item of the list and each list
     entry is the protein composition of the complex) and an
     interactome (in the bi-partite matrix representation) and checks
     to see if each complex of the list is either in the interactome, a
     sub-complex of some complex(es) of the interactome, or a
     super-complex of some complex(es) of the interactome.

_U_s_a_g_e:

     checkComplex(comps, interactome)

_A_r_g_u_m_e_n_t_s:

   comps: A named list of protein complexes. The names corresponds the
          protein complexes and the entries correspond to the complex
          composition

interactome: A bi-partite graph representation of some interactome

_D_e_t_a_i_l_s:

     This is another QC function to check the participation of certain
     protein complexes. The out-put will describe how the various
     protein complexes in question relate to the protein complexes of
     the interactome in question.

_V_a_l_u_e:

     A named list: 

   equal: A named character vector - the name equals the entry

  subset: A named char vector - the name is a subset of the entry

superset: A named char vector - the name is a superset of the entry

sameNameNotEqual: A named char vector - the name is equal to the name
          of the entry but the composition is not equal

_A_u_t_h_o_r(_s):

     T Chiang

